Using biomaRt for getting Go Terms

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chawla ▴ 190

@chawla-4416

Last seen 10.2 years ago

Hi how can I use biomaRt to get a single GO term (high ranking) for each gene (entrez rat IDs). Konika

GO biomaRt GO biomaRt • 2.8k views

ADD COMMENT • link updated 20 months ago by Divya • 0 • written 13.9 years ago by chawla ▴ 190

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Hotz, Hans-Rudolf ▴ 400

@hotz-hans-rudolf-3951

Last seen 4.1 years ago

Switzerland

Hi I don't quite understand what you mean by "a single GO term (high ranking)", but the following might get you started: library(biomaRt) entrez=c("314417") rn = useDataset("rnorvegicus_gene_ensembl", mart=useMart("ensembl")) getBM(attributes=c('entrezgene','go_biological_process_id'), filters='entrezgene', values=entrez, mart=rn) Regards, Hans On 12/28/2010 11:22 PM, chawla wrote: > Hi > how can I use biomaRt to get a single GO term (high ranking) for each > gene (entrez rat IDs). > Konika > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor

ADD COMMENT • link 13.9 years ago Hotz, Hans-Rudolf ▴ 400

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its creating lot of noise and generating the more than one GO term id for the one ensemble ID.

ADD REPLY • link 20 months ago Divya • 0

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